genome.fa.s7716.2.7.7.80.10.50.1000.2.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01007716.1 Hibiscus syriacus cultivar Beakdansim tig00109945_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4364108

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  2  of  17  ( 1966 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
403582--403623	22	1.9	22	85	0	57	80	7	11	0	0.88
409724--409788	20	3.3	19	85	6	85	35	6	18	40	1.76
412398--412462	20	3.3	20	84	2	87	38	4	16	40	1.70
412913--412977	34	1.9	34	81	9	80	36	15	26	21	1.93
415234--415285	20	2.7	20	81	3	70	36	7	15	40	1.76
415234--415306	20	3.7	20	76	8	69	38	9	16	35	1.81
416089--416240	30	5.2	30	85	4	211	32	5	22	39	1.76
416089--416240	29	5.2	29	85	7	200	32	5	22	39	1.76
423344--423527	29	6.3	29	84	7	205	33	4	21	41	1.73
423344--423492	57	2.6	58	86	5	203	33	4	22	39	1.73
423353--423517	86	1.9	86	84	7	219	35	4	20	40	1.72
424618--424657	20	1.9	22	90	10	66	37	40	10	12	1.77
426946--427008	31	2.0	31	81	6	74	36	20	6	36	1.78
427082--427148	26	2.6	26	81	11	84	28	29	17	23	1.97
431614--431673	21	2.9	21	71	0	57	35	23	11	30	1.90
432031--432068	2	19.0	2	100	0	76	50	0	0	50	1.00
441412--441450	2	20.0	2	84	5	53	46	2	0	51	1.14
442249--442305	16	3.4	16	71	21	53	35	3	12	49	1.58
442233--442307	35	2.1	35	97	0	141	32	5	13	49	1.64
442237--442293	18	3.2	18	72	22	66	29	1	14	54	1.50
444412--444466	13	3.9	14	74	16	51	12	7	1	78	1.04
444430--444482	24	2.2	26	86	10	76	13	9	0	77	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
444412--444473	16	4.2	16	71	25	55	12	8	1	77	1.06
444510--444545	17	2.0	18	89	10	56	16	11	0	72	1.12
444592--444660	10	6.6	10	76	15	59	21	0	4	73	1.00
447120--447158	8	5.0	8	84	6	53	10	17	12	58	1.61
452309--452362	20	2.7	20	82	2	63	1	11	12	74	1.16
452335--452382	11	4.4	11	81	7	53	2	6	8	83	0.88
452316--452383	19	3.4	19	82	11	82	1	7	11	79	0.99
454779--454822	22	2.0	22	95	0	79	38	22	13	25	1.91
455228--455300	32	2.3	33	80	4	87	27	15	24	32	1.95
455688--455786	37	2.7	37	90	0	162	17	19	17	46	1.84
456033--456767	106	7.0	106	89	2	1115	32	25	19	22	1.97
458141--458209	10	6.5	11	74	22	58	17	7	0	75	1.02
458235--458270	17	2.0	18	89	10	56	16	11	0	72	1.12
458311--458379	9	7.6	9	76	9	52	20	1	4	73	1.07
458318--458379	10	6.6	10	76	14	60	19	0	4	75	0.97
458329--458375	14	3.5	14	75	18	55	17	0	4	78	0.90
458776--458920	72	2.0	72	94	0	254	33	17	9	38	1.83
462106--462152	24	2.0	24	82	0	58	21	17	17	44	1.86
462134--462200	24	2.8	24	72	17	66	23	14	14	46	1.83
463536--463570	18	1.9	18	88	0	52	45	5	0	48	1.26
463618--463760	60	2.4	58	79	6	153	38	7	2	51	1.42
463780--463857	31	2.6	29	80	9	93	39	8	0	51	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463780--463846	31	2.2	30	89	2	98	38	10	0	50	1.37
463926--463986	2	30.5	2	100	0	122	49	0	0	50	1.00
465147--465171	7	3.6	7	100	0	50	44	0	0	56	0.99
469323--469392	12	5.8	12	78	6	70	15	14	18	51	1.77
469286--469394	24	4.5	24	80	4	112	19	17	16	46	1.84
469286--469394	48	2.3	48	83	3	130	19	17	16	46	1.84
478886--479249	181	2.0	181	99	0	719	29	25	14	31	1.95
482194--482224	14	2.1	15	94	5	55	51	6	0	41	1.27
482284--482330	23	2.0	24	83	4	60	36	21	17	25	1.94
482598--482650	26	2.0	26	85	7	72	39	7	1	50	1.41
486006--486057	17	3.0	17	75	13	52	71	1	0	26	0.97
486328--486608	132	2.1	131	81	5	323	22	18	31	28	1.97
486616--486748	37	3.6	36	80	10	126	33	12	18	36	1.87
486644--486756	37	3.0	37	88	3	156	30	11	15	42	1.83
486761--486804	21	2.2	20	83	4	52	47	15	18	18	1.83
486920--487007	30	2.8	32	86	3	117	42	10	11	36	1.75
487027--487125	29	3.2	29	67	21	76	43	16	11	29	1.82
487780--487810	14	2.2	14	94	0	53	19	3	29	48	1.64
487771--487807	18	2.0	19	94	5	67	21	8	27	43	1.80
494201--494234	3	11.3	3	87	12	52	67	0	0	32	0.91
494185--494234	24	2.1	24	85	7	66	64	0	2	34	1.05
495882--495924	19	2.3	19	92	4	70	48	16	6	27	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496803--497175	54	6.9	54	85	0	458	28	19	19	32	1.96
504540--504577	11	3.2	12	81	11	51	26	5	15	52	1.64
508944--508979	17	2.1	17	94	0	63	36	2	27	33	1.72
510799--510834	17	2.1	17	94	0	63	36	2	27	33	1.72
512654--512689	17	2.1	17	94	0	63	36	2	27	33	1.72
525786--525842	19	3.3	19	68	27	63	29	19	26	24	1.98
525784--525863	32	2.5	32	100	0	160	31	18	23	26	1.98
529109--529168	28	2.1	27	82	17	70	43	0	0	56	0.99
529330--529384	23	2.4	24	82	17	64	43	0	0	56	0.99
529094--529539	216	2.0	219	96	2	826	46	4	2	45	1.39
533357--533397	20	2.0	20	100	0	82	24	9	31	34	1.88
533918--534185	136	2.0	137	83	0	340	27	14	16	41	1.87
534892--534927	11	3.3	11	92	0	54	52	0	2	44	1.15
538679--538719	21	1.9	22	90	5	66	39	12	19	29	1.88
540552--540600	12	4.2	12	82	10	57	40	0	0	59	0.98
541797--541843	20	2.2	21	85	7	60	2	23	2	72	1.06
542155--542234	42	1.9	42	82	2	99	35	22	18	23	1.96
541924--543295	261	5.3	262	87	4	1863	35	17	14	32	1.90
542932--543033	42	2.5	41	80	3	132	32	20	22	24	1.98
551381--551408	2	14.0	2	100	0	56	50	0	0	50	1.00
559980--560039	7	8.4	7	80	9	52	53	3	0	43	1.17
559983--560040	2	30.0	2	83	13	68	51	3	0	44	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559969--560037	34	2.1	34	81	10	81	56	2	1	39	1.23
559992--560039	9	5.6	9	85	5	55	52	2	0	45	1.12
559992--560066	16	4.9	16	75	15	61	49	1	4	45	1.29
561205--561243	21	1.9	20	94	5	69	20	15	30	33	1.94
561268--561299	3	11.0	3	93	6	57	68	0	0	31	0.90
561354--561414	2	30.5	2	83	6	79	47	1	0	50	1.10
561333--561395	12	5.2	13	83	7	71	49	0	0	50	1.00
561605--561653	21	2.4	21	80	12	57	42	4	2	51	1.32
564494--564556	29	2.2	29	91	0	99	36	9	14	39	1.78
567488--567520	15	2.1	16	88	5	50	75	6	3	15	1.11
567504--567913	207	2.0	211	94	5	726	36	15	13	33	1.87
569334--569389	23	2.4	23	81	0	67	25	7	14	53	1.66
570000--570303	135	2.3	133	84	4	373	27	17	26	27	1.98
571241--571284	23	1.9	23	90	9	72	6	15	0	77	0.97
571241--571286	16	2.8	16	80	3	56	6	17	0	76	1.00
581371--581407	15	2.4	16	86	4	58	75	5	2	16	1.10
582493--582523	15	2.1	15	93	0	53	54	22	12	9	1.67
582589--582646	16	3.6	16	97	0	107	56	22	12	8	1.62
583379--583434	14	4.3	14	80	17	66	53	25	12	8	1.67
583359--583433	24	3.1	24	88	3	98	56	21	10	12	1.66
586819--586849	16	1.9	16	93	0	53	0	41	3	54	1.16
588022--588088	35	1.9	35	82	11	84	46	8	0	44	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589801--589837	6	6.2	6	93	0	56	62	0	0	37	0.96
589957--590050	13	7.4	13	74	11	52	70	2	4	23	1.16
590058--590085	2	14.0	2	100	0	56	50	0	0	50	1.00
591426--591699	36	8.3	33	71	20	189	44	5	3	47	1.42
591439--591566	66	2.0	66	87	3	188	42	6	3	48	1.44
591569--591630	28	2.2	28	85	0	79	41	6	4	46	1.51
591531--591731	63	3.1	60	78	14	188	44	6	3	44	1.47
592378--593155	84	9.4	84	79	6	669	24	21	23	30	1.99
592437--593155	329	2.2	327	87	3	1014	25	21	23	30	1.99
592378--593112	165	4.5	164	82	3	859	25	21	23	30	1.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17